d8a34f168b65a616fb185dbff94af89c426668b6
angie
  Mon Jul 10 12:02:02 2023 -0700
Mask position 337 in BN.1.2.3 -- noisy.

diff --git src/hg/utils/otto/sarscov2phylo/branchSpecificMask.yml src/hg/utils/otto/sarscov2phylo/branchSpecificMask.yml
index a7bd6b6..f79de9b 100644
--- src/hg/utils/otto/sarscov2phylo/branchSpecificMask.yml
+++ src/hg/utils/otto/sarscov2phylo/branchSpecificMask.yml
@@ -75,30 +75,36 @@
 BA.2.75:
     # Inherits BA.2 masking but has so many problems with false reversions I'm adding a ton here.
     representative: India/WB-INSACOG-1931503209307/2022
     reversions: [ # BA.2-level but not masked BA.2-wide to avoid messing up recombinants:
                   G670T, T2790C, T3037C, T4321C, G9424A, T9534C, T9866C, T10029C, T10198C,
                   G18163A, T19955C, G20055A, T21618C, G22200T, A22578G, T22674C, C22679T,
                   T22686C, G22688A, A22775G, T22813G, A22992G, A22995C, C23013A, G23055A,
                   T23063A, C23075T, G23403A, T23525C, G23599T, A23604C, T23948G, T24424A,
                   A24469T, T25000C, T26270C, G26577C, T27807C, T28271A, C29510A,
                   # BA.2.75-defining, very dropout-prone:
                   T4586C, G22001A, C22016T, A22033C, G22190A, C22577G, G26275A,
                   # BA.2.75-defining, bad but maybe not quite as bad:
                   T3796C, T3927C, T5183C, G12444A, A15451G, G22190A, A22331G, A22898G,
                   G22942T, C23013A ]
 
+BN.1.2.3:
+    # Inherits from BA.2.75
+    representative: England/QEUH-326228D4/2022
+    sites: [ 337 # https://github.com/cov-lineages/pango-designation/issues/2016#issuecomment-1626159006
+           ]
+
 BA.4:
     # BA.4 is placed on the BA.2 branch so it inherits all the BA.2 sites.
     representative: SouthAfrica/NICD-N41664/2022
     ranges: [ [ 686, 694 ], [ 21765, 21770 ] ]
 
 BA.5:
     # BA.5 is placed on the BA.2 branch so it inherits all the BA.2 sites.
     representative: England/PHEP-YYFJPAM/2022
     ranges: [ [ 21765, 21770 ] ]
     # Some of these should be reverted in recombinants, but we're pretty much past the point of
     # simultaneous Delta/Omicron and the noise from false reversions is so intolerable that we'll
     # just have to watch out for missing reversions when working with recombinants.
     reversions: [ G670T, T2790C, T3037C, A4184G, T4321C, G9424A, T9534C, T10198C, A12160G,
                   T15714C, T17410C, G18163A, T19955C, G20055A, T21618C, G22200T, A22578G,
                   T22674C, C22679T, T22686C, G22688A, A22775G, T22813G, G22882T, G22917T,